genome.fa.s8527.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   

This is table  4  of  37  ( 4336 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
716796--716847	26	2.0	26	92	0	86	44	13	7	34	1.72
716917--716955	21	1.9	20	89	5	60	71	17	0	10	1.12
719428--719460	5	6.6	5	100	0	66	81	0	0	18	0.68
719751--719830	37	2.2	37	100	0	160	37	23	11	27	1.89
726587--726671	39	2.2	39	82	4	100	24	10	29	35	1.89
735425--735566	50	2.8	51	76	5	128	16	28	28	26	1.97
735729--735769	18	2.3	18	91	4	66	29	4	2	63	1.28
737965--738036	26	3.0	24	68	27	62	26	6	4	62	1.39
747757--747812	28	2.0	28	89	6	87	32	10	3	53	1.53
748470--748583	60	1.9	60	87	3	167	37	9	13	39	1.77
748464--748594	60	2.2	59	82	6	165	36	12	11	39	1.79
757693--757740	25	1.9	25	83	8	62	52	2	0	45	1.12
757825--757877	23	2.2	24	83	3	63	49	1	1	47	1.23
758097--758157	23	2.7	23	82	12	72	52	0	0	47	1.00
765167--765200	16	2.1	17	88	5	52	41	2	5	50	1.42
776166--776250	29	2.9	29	98	0	161	42	10	16	30	1.82
785602--785681	32	2.5	32	97	0	151	55	2	13	28	1.52
789389--789447	30	1.9	30	83	16	77	22	3	1	72	1.08
789398--789434	19	1.9	19	89	10	58	21	2	0	75	0.92
789461--789506	23	2.1	21	84	8	56	21	6	8	63	1.46
790710--790734	2	12.5	2	100	0	50	52	0	0	48	1.00
814605--814643	17	2.4	17	91	4	62	30	0	7	61	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
819432--819512	32	2.6	31	76	7	92	41	1	2	54	1.21
826695--826720	13	2.0	13	100	0	52	46	15	23	15	1.83
828419--828476	29	2.0	29	100	0	116	48	17	17	17	1.82
836342--836383	2	21.0	2	90	0	66	45	0	4	50	1.23
836397--836438	16	2.6	16	100	0	84	30	7	11	50	1.66
838717--838747	15	2.1	15	93	0	53	38	16	12	32	1.86
843034--843091	29	2.0	29	100	0	116	68	10	3	17	1.31
844812--844850	17	2.2	19	86	9	55	61	2	0	35	1.10
845310--845440	65	2.0	65	92	0	217	36	11	14	37	1.82
846081--846142	21	3.0	21	95	0	106	19	14	25	40	1.90
851376--851414	2	19.5	2	100	0	78	48	0	0	51	1.00
856675--856713	2	19.5	2	100	0	78	48	0	0	51	1.00
862406--862444	17	2.2	18	90	4	62	23	15	23	38	1.92
865822--865860	2	19.5	2	100	0	78	51	0	0	48	1.00
876011--876052	22	1.9	22	85	0	57	52	14	11	21	1.73
886333--886393	11	5.2	11	79	11	59	37	1	0	60	1.07
886334--886416	37	2.2	37	95	0	148	37	2	0	60	1.10
886332--886402	11	6.4	11	75	13	56	35	2	0	61	1.10
892097--892133	20	1.9	19	89	10	58	48	5	21	24	1.71
892278--892328	22	2.3	21	87	12	68	43	3	0	52	1.19
904756--904800	20	2.2	20	88	0	63	44	15	15	24	1.85
904898--905136	77	3.1	76	90	3	372	37	22	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
904955--905002	20	2.4	20	89	6	71	35	25	14	25	1.94
905032--905085	20	2.7	20	86	13	83	33	24	12	29	1.92
904975--905327	134	2.6	134	87	0	517	37	22	14	25	1.93
904823--905269	211	2.1	211	85	3	596	37	21	14	25	1.93
905064--905191	57	2.2	56	87	2	184	37	23	13	25	1.91
905166--905211	20	2.3	20	92	0	74	30	26	15	28	1.96
905111--905268	77	2.1	77	86	0	217	37	21	15	25	1.93
905413--905466	20	2.7	20	91	5	83	40	18	16	24	1.90
904978--905518	191	2.8	190	77	8	587	37	21	15	25	1.92
905186--905421	57	4.1	57	89	0	355	36	21	15	25	1.93
905491--905532	20	2.1	20	95	0	75	30	23	14	30	1.94
905360--905659	154	1.9	154	86	5	428	36	19	16	27	1.93
904882--905608	134	5.4	133	71	11	445	37	21	14	26	1.92
905568--905616	20	2.5	20	96	0	89	30	28	14	26	1.95
905360--905659	77	3.9	77	83	6	385	36	19	16	27	1.93
905652--905735	20	4.2	20	77	6	89	21	13	26	39	1.90
909284--909397	57	2.0	57	91	1	185	34	30	20	14	1.93
909470--909533	24	2.7	24	95	0	110	34	20	18	26	1.96
913260--913299	20	1.9	22	85	10	57	35	5	10	50	1.58
914431--914533	29	3.8	25	78	18	86	44	5	4	44	1.49
914586--914816	2	113.0	2	64	22	63	43	5	4	46	1.45
914579--914672	27	3.6	28	74	20	87	46	4	3	45	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914592--914967	27	14.4	26	63	24	91	42	5	5	46	1.50
914831--914868	19	2.0	19	89	0	58	52	5	0	42	1.24
914714--914969	27	9.4	27	70	17	133	42	6	5	45	1.52
914892--914981	27	3.3	27	77	9	94	38	4	6	50	1.49
915815--915945	30	4.1	32	70	14	83	45	3	5	45	1.41
915893--916022	27	4.5	27	72	18	70	42	3	5	48	1.44
915808--915959	28	5.3	28	71	22	95	47	2	4	45	1.37
916923--916972	16	3.2	16	80	11	59	48	8	2	42	1.44
916981--917025	15	3.0	15	76	0	54	35	6	13	44	1.70
917324--917358	11	3.0	12	83	8	54	40	8	5	45	1.58
917641--917694	20	2.6	21	76	5	56	44	1	0	53	1.11
918335--918367	17	1.9	18	88	11	52	12	12	6	69	1.35
936075--936295	117	1.9	119	84	4	304	32	16	9	42	1.80
938215--938271	25	2.3	25	93	3	98	29	21	10	38	1.87
943895--943923	14	2.0	15	93	6	51	62	0	0	37	0.96
948844--948872	2	14.5	2	100	0	58	51	0	0	48	1.00
961900--961946	12	4.1	12	78	5	53	51	8	10	29	1.66
972488--972515	13	2.2	13	100	0	56	46	0	21	32	1.52
974477--974524	23	2.1	23	92	0	78	54	0	2	43	1.12
981202--981325	48	2.5	50	78	5	144	16	33	28	21	1.95
983000--983067	29	2.3	29	97	0	127	29	29	8	32	1.87
983225--983296	20	3.6	21	74	7	60	31	27	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
983670--983700	13	2.5	13	94	5	55	0	6	16	77	0.97
983725--983757	14	2.3	15	89	5	50	48	21	15	15	1.81
985881--985936	21	2.7	20	75	10	58	25	35	14	25	1.93
985889--985986	21	4.7	21	72	9	67	24	33	19	22	1.97
987403--987439	14	2.6	14	86	0	56	32	2	16	48	1.60
987566--987603	20	1.9	20	94	0	67	42	23	18	15	1.89
987644--987697	20	2.7	20	82	0	72	22	16	20	40	1.91
987917--988002	39	2.2	39	95	0	154	18	15	18	47	1.82
988301--988364	24	2.7	24	73	4	67	46	10	4	37	1.60
988732--988781	25	2.0	25	96	0	91	44	22	8	26	1.80
988842--988883	20	2.1	20	86	0	57	40	19	21	19	1.92
988936--988985	20	2.5	20	90	0	73	12	18	24	46	1.82
990861--990894	12	2.8	12	90	0	50	14	0	29	55	1.40
991640--991709	19	3.6	20	82	5	81	25	12	24	37	1.91
997929--997993	30	2.2	30	83	5	78	23	27	23	26	2.00
998002--998107	15	7.1	15	78	0	113	24	22	23	29	1.99
998010--998119	15	7.3	15	76	0	112	25	20	23	30	1.99
997983--998164	30	6.0	30	85	6	231	23	23	25	28	1.99
998169--998332	63	2.6	63	86	0	238	26	25	21	26	2.00
1002389--1002447	20	3.0	20	92	0	100	37	20	18	23	1.94
1002384--1002474	40	2.3	41	79	11	107	39	20	15	24	1.91
1002602--1002652	22	2.3	22	86	0	75	17	43	21	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004489--1004554	27	2.4	27	94	0	114	22	43	6	27	1.76
1004856--1004896	12	3.5	11	86	3	55	26	0	4	68	1.10
1005040--1005157	21	5.6	21	79	0	110	23	34	16	24	1.95
1006560--1006615	29	1.9	29	96	0	103	26	17	25	30	1.97
1009085--1009138	24	2.2	24	93	0	90	40	20	18	20	1.91
1009085--1009152	24	2.8	24	84	0	64	38	20	17	23	1.93
1009264--1009297	12	2.8	12	90	0	50	14	0	29	55	1.40
1010137--1010201	20	3.2	20	78	8	69	43	10	24	21	1.84
1010147--1010273	20	6.4	20	75	10	100	33	12	27	25	1.92
1010167--1010281	40	2.9	40	76	6	117	33	12	26	26	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37